Escherichia coli uses σ factors to quickly control large gene cohorts during stress conditions. While most of its genes respond to a single σ factor, approximately 5% of them have dual σ factor preference. The most common are those responsive to both σ70, which controls housekeeping genes, and σ38, which activates genes during stationary growth and stresses. Using RNA-seq and flow-cytometry measurements, we show that ‘σ70+38 genes’ are nearly as upregulated in stationary growth as ‘σ38 genes’. Moreover, we find a clear quantitative relationship between their promoter sequence and their response strength to changes in σ38 levels. We then propose and validate a sequence dependent model of σ70+38 genes, with dual sensitivity to σ38 and σ70, that is applicable in the exponential and stationary growth phases, as well in the transient period in between. We further propose a general model, applicable to other stresses and σ factor combinations. Given this, promoters controlling σ70+38 genes (and variants) could become important building blocks of synthetic circuits with predictable, sequence-dependent sensitivity to transitions between the exponential and stationary growth phases.
|Julkaisu||Biochimica et Biophysica Acta - Gene Regulatory Mechanisms|
|DOI - pysyväislinkit|
|Tila||Julkaistu - huhtik. 2022|
|OKM-julkaisutyyppi||A1 Alkuperäisartikkeli tieteellisessä aikakauslehdessä|
- Jufo-taso 1
!!ASJC Scopus subject areas
- Structural Biology
- Molecular Biology
SormenjälkiSukella tutkimusaiheisiin 'Sequence-dependent model of genes with dual σ factor preference'. Ne muodostavat yhdessä ainutlaatuisen sormenjäljen.
Calado Baptista, I. (Creator), Kandavalli, V. (Creator), Chauhan, V. (Creator), Mohamed Bahrudeen, M. (Creator), Lima de Brito Almeida, B. (Creator), Palma, C. (Creator), Dash, S. (Creator) & Sanches Ribeiro, A. (Creator), 11 huhtik. 2022